CREST sub-ACT6210: Nuisance Regression Error #21
Description
Seeding Script
for sub in $(cat /Volumes/vosslabhpc/Projects/CREST/derivatives/sublists/ardlifespan_act_ahseeding_sublist.txt); do
docker run -it -v /Volumes/vosslabhpc/Projects/CREST:/data hbclab/restingstate:v0.3.1 \
--epi=/data/${sub}/func/${sub}_task-rest_bold.nii.gz \
--t1=/data/${sub}/anat/${sub}_T1w.nii.gz \
--t1_mask=/data/derivatives/fmriprep/${sub}/anat/${sub}_desc-brain_mask.nii.gz \
--roiList=/data/derivatives/roilists/AHseedingROIlist_docker.txt \
--compcor_global
done
Command Line Output
Running /opt/RestingState/removeNuisanceRegressor.sh ...
/opt/RestingState/ROIs/global.nii.gz is in MNI space
/data/derivatives/rsOut/sub-ACT6210/SNR/CSF_pve_to_RS_thresh.nii.gz is in native space
/data/derivatives/rsOut/sub-ACT6210/SNR/WM_pve_to_RS_thresh_ero.nii.gz is in native space
Performing a 'bandpass' filter. Frequencies between .08 & .008 will be filtered.
++ 3dTproject: AFNI version=Debian-18.0.05+git24-gb25b21054~dfsg.1-1~nd90+1 (Jan 23 2018) [64-bit]
++ Authored by: Cox the Algebraic (Linear)
*+ WARNING: If you are performing spatial transformations on an oblique dset,
such as /data/derivatives/rsOut/sub-ACT6210/preproc/nonfiltered_smooth_data.nii.gz,
or viewing/combining it with volumes of differing obliquity,
you should consider running:
3dWarp -deoblique
on this and other oblique datasets in the same session.
See 3dWarp -help for details.
++ Oblique dataset:/data/derivatives/rsOut/sub-ACT6210/preproc/nonfiltered_smooth_data.nii.gz is 7.902490 degrees from plumb.
++ Oblique dataset:/data/derivatives/rsOut/sub-ACT6210/mcImgMean_mask.nii.gz is 7.902490 degrees from plumb.
++ Setting up regressors
++ setting up stopband frequency mask
+ run #0 has 48 time points
+ stopband 0.0000..0.0079 = indexes 0..1 = 0.0000..0.0104
+ stopband 0.0801..0.2510 = indexes 8..24 = 0.0833..0.2500
+ Block #0: 48 time points -- 35 stopband regressors
++ 1 Blocks * 3 polynomials -- 3 polort regressors
+ -- 17 other fixed ort regressors
** ERROR: total number of fixed regressors (55) is too many for 48 retained time points!
** FATAL ERROR: Cannot continue after above errors :-( :-( :-( !!
** Program compile date = Jan 23 2018
...Scaling data by 1000
cp: cannot stat '/data/derivatives/rsOut/sub-ACT6210/nuisanceRegression/compcor_global/nonfiltered_smooth_data_bp_res4d.nii.gz': No such file or directory
...Copy Brain mask
...Normalize Data
Cannot open volume /data/derivatives/rsOut/sub-ACT6210/nuisanceRegression/compcor_global/nonfiltered_smooth_data_bp_res4d for reading!
Cannot open volume /data/derivatives/rsOut/sub-ACT6210/nuisanceRegression/compcor_global/nonfiltered_smooth_data_bp_res4d for reading!
Cannot open volume /data/derivatives/rsOut/sub-ACT6210/nuisanceRegression/compcor_global/nonfiltered_smooth_data_bp_res4d for reading!
Cannot open volume /data/derivatives/rsOut/sub-ACT6210/nuisanceRegression/compcor_global/nonfiltered_smooth_data_bp_res4d_dmean for reading!
Cannot open volume /data/derivatives/rsOut/sub-ACT6210/nuisanceRegression/compcor_global/nonfiltered_smooth_data_bp_res4d_normed for reading!
/opt/RestingState/removeNuisanceRegressor.sh Complete
From here on out, continued errors.